Protein Info for Sama_2380 in Shewanella amazonensis SB2B

Updated annotation (from data): Isocitrate lyase (EC 4.1.3.1)
Rationale: Specifically important for utilizing Tween 20. Automated validation from mutant phenotype: the predicted function (ISOCIT-CLEAV-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Original annotation: isocitrate lyase (RefSeq)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

• TIGR01346: isocitrate lyase
  • amino acids 13 to 259 (247 residues), 381.7 bits, E=2.5e-118
  • amino acids 260 to 438 (179 residues), 301 bits, E=6.8e-94
• PF00463: ICL
  • amino acids 16 to 259 (244 residues), 201.7 bits, E=1.9e-63
  • amino acids 261 to 438 (178 residues), 175.5 bits, E=1.6e-55
• PF13714: PEP_mutase
  • amino acids 85 to 309 (225 residues), 61.6 bits, E=9.2e-21

Best Hits

Swiss-Prot: 82% identical to ACEA_SALTY: Isocitrate lyase (aceA) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K01637, isocitrate lyase [EC: 4.1.3.1] (inferred from 100% identity to saz:Sama_2380)

MetaCyc: 81% identical to isocitrate lyase (Escherichia coli K-12 substr. MG1655)
Isocitrate lyase. [EC: 4.1.3.1]

Predicted SEED Role

"Isocitrate lyase (EC 4.1.3.1)" in subsystem Serine-glyoxylate cycle (EC 4.1.3.1)

MetaCyc Pathways

• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (22/26 steps found)
• glyoxylate cycle (6/6 steps found)
• superpathway of glyoxylate bypass and TCA (10/12 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)

KEGG Metabolic Maps

• Glyoxylate and dicarboxylate metabolism

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.1.3.1

Sequence Analysis Tools

See A1S878 at UniProt or InterPro

Protein Sequence (439 amino acids)

>Sama_2380 Isocitrate lyase (EC 4.1.3.1) (Shewanella amazonensis SB2B)
MSKYISRQEQIDALKKDWAENPRWKGVRRPYTAEEVVSLRGSFVPENTVAQRGAAKLWDL
VNGGAKKGYVNSLGALTGGQAVQQAKAGIEAIYLSGWQVAADANLAGTMYPDQSLYPANS
VPAVVGRINNSFRRADQIQWSNGVGPEDDKFVDYFLPIVADAEAGFGGVLNAYELMKSMI
DAGAAGVHFEDQLASVKKCGHMGGKVLVPTQEAVQKLVAARLAADVSGVETLVIARTDAN
AADLLTSDCDPYDSDFITGERTSEGFYRVRAGLDQAIARGLAYAPYADLIWCETAKPDLE
EARRFAEAIHAKYPDQLLAYNCSPSFNWKKNLDDATIAKFQQALSDMGYKYQFITLAGIH
NMWFNMFDLAYDYARGEGMKHYVEKVQEAEFAAASKGYTFVAHQQEVGTGYFDKMTNIIQ
GGASSVTALTGSTEEEQFH